First post, take it easy on me. But here's my .02: Negroponte has never held a collector position any intel organization, so he lacks rapport with that part of the community. Now for the other side of the coin, he does have the inherent skills of dealing with bureaucratic BS and with that kind of background it may foster some hope of cohesion and intel sharing. Hope is the key word.
The SECDEF has already made plans to create a DoD level intel command. He wants it to be a 4 star post to compete with the civilian side.
I work for an intel organization and state needs to stay indoors and leave the collection up to us and the shooting and nation building to the green hats.
This should sum it up. A diplomat is a person who tells you to go to hell in such a way that you actually look forward to the trip.